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Table 3 The top 6 gene networks associated with the TBI-C dataset

From: Bilateral gene interaction hierarchy analysis of the cell death gene response emphasizes the significance of cell cycle genes following unilateral traumatic brain injury

Network ID

Molecules in network

Score

Focus molecules

Top diseases and functions

1

ACER2, ACIN1, ACVR1C, ALDH1A2, ARHGEF7, BCL11B, caspase, CBFB, CD38, CD44, CLCN3, CUL5, DPYD, EEF1A2, FGL2, Fibrinogen, ITGB1, MAP3K1, MAP3K8, MAPK8, MAPK9, MIF, MTDH, PAK1, PRDX6, Rac, RAD23B, SPARC, Srebp, TNKS2, TTLL1, VCL, WNT5A, ZBTB18, ZYX

50

31

Cell Death and Survival, Cellular Movement, Ophthalmic Disease

2

ABCA1, AURKAIP1, BRINP1, BTG2, CACNA1G, CAV1, CCND1, CDK2, DCK, GCLC, Histone h3, Histone h4, Insulin, IRAK1, KMT2A, LCN2, MAFG, MTMR1, P110, PIAS1, PPARGC1B, Pro-inflammatory Cytokine, Ras homolog, RBM5, RNA polymerase II, SBF1, SETD8, SLC18A2, SMARCA2, SOX2, STAT1, TRPM7, ZBTB7A, ZMYND11, ZNF148

44

28

Cell Death and Survival, Gene Expression, Cellular Growth and Proliferation

3

ADNP, AHI1, ANKS1B, ARL6IP1, CDK11A, CXCL12, DNAJB6, ENC1, estrogen receptor, FBXO9, FBXW7, FGFR3, G2E3, Hdac, HSP, Hsp90, HSP90AA1, HSP90AB1, HSPB1, KLF9, KLF13, LINGO1, MED1, MED14, mediator, PA2G4, PGR, PPP3CB, RNF4, STUB1, THRA, TRAP/Media, TUFM, Ubiquitin, VPS41

43

28

Cell Death and Survival, Post-Translational Modification, Protein Folding

4

A2M, ACACA, AKT2, ALDH1A1, Alp, AMPK, ATG12, ATP1A1, BSG, CA3, EIF5B, ENTPD5, FGF9, FGFR1, Focal adhesion kinase, FOXO1, KRAS, MAP1B, MEF2A, Mlc, NLK, NTRK3, PALLD, PDPK1, PITX2, PPP3R1, PRKAA1, PRKCD, PSMA7, RASSF4, RPS24, Serbp1, Sfk, STK17B, TAOK1

41

30

Cell Death and Survival, Carbohydrate Metabolism, Cellular Development

5

ACAC, AP2B1, APAF1, APC-AXIN-GSK3β, ATP2A2, ATP2B1, ATP2B2, BAX, Ca2 ATPase, calpain, CAST, CDH13, Cytochrome bc1, cytochrome C, cytochrome-c oxidase, DDIT4, DNM1L, GBX2, glutathione peroxidase, GSK3B, ITSN1, KCND2, LMO4, MAFB, MAOA, MFN1, Mitochondrial complex 1, MTF2, NCS1, NDUFAB1, NFE2L1, OPA1, PACS2, PEX11B, PRKAA2

39

26

Cell Death and Survival, Cell Cycle, Cellular Compromise

6

Ap1, ARHGAP1, ARL6IP5, CCDC86, CCND2, CEBPD, Cg, COL1A1, DACH1, FSH, Growth hormone, Gsk3, IGFBP3, Lh, MGEA5, NEO1, PDHA1, PPP2R1A, PRLR, PSIP1, PURA, RAB27A, RPRM, RSF1, SMAD4, SMAD7, Smad1/5/8, Smad2/3, SP1, SPP1, TAF4B, Tgf beta, TIMP1, TNRC6A, ZMYM2

39

26

Cell Death and Survival, Tissue Development, Cellular Growth and Proliferation

  1. Bold= > Gene included in the dataset
  2. Note: Some of the nodes in the original networks represent gene groups, complexes or families that, when expanded, contain more potential GOI
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BMC Genomics

ISSN: 1471-2164

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